Multiple sequence alignment - TraesCS5B01G549300

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS5B01G549300 chr5B 100.000 3600 0 0 1 3600 701187062 701190661 0.000000e+00 6649.0
1 TraesCS5B01G549300 chr5B 92.401 908 69 0 1703 2610 701196390 701195483 0.000000e+00 1295.0
2 TraesCS5B01G549300 chr5D 89.188 3672 201 86 57 3600 549645909 549649512 0.000000e+00 4401.0
3 TraesCS5B01G549300 chr5D 91.209 910 79 1 1703 2611 549656849 549655940 0.000000e+00 1236.0
4 TraesCS5B01G549300 chr5D 79.723 577 60 26 825 1377 549657774 549657231 7.350000e-97 364.0
5 TraesCS5B01G549300 chr5D 78.788 198 29 6 1453 1637 549657077 549656880 1.760000e-23 121.0
6 TraesCS5B01G549300 chr4A 90.624 2101 112 33 735 2764 621187744 621189830 0.000000e+00 2710.0
7 TraesCS5B01G549300 chr4A 91.794 914 75 0 1703 2616 621241381 621240468 0.000000e+00 1273.0
8 TraesCS5B01G549300 chr4A 84.426 610 47 17 3030 3600 621190905 621191505 1.130000e-154 556.0
9 TraesCS5B01G549300 chr4A 89.145 433 26 6 86 501 621181509 621181937 1.480000e-143 520.0
10 TraesCS5B01G549300 chr4A 82.045 401 42 11 1001 1377 621242129 621241735 7.500000e-82 315.0
11 TraesCS5B01G549300 chr4A 74.908 271 38 19 98 340 621242978 621242710 2.960000e-16 97.1


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS5B01G549300 chr5B 701187062 701190661 3599 False 6649.000000 6649 100.000000 1 3600 1 chr5B.!!$F1 3599
1 TraesCS5B01G549300 chr5B 701195483 701196390 907 True 1295.000000 1295 92.401000 1703 2610 1 chr5B.!!$R1 907
2 TraesCS5B01G549300 chr5D 549645909 549649512 3603 False 4401.000000 4401 89.188000 57 3600 1 chr5D.!!$F1 3543
3 TraesCS5B01G549300 chr5D 549655940 549657774 1834 True 573.666667 1236 83.240000 825 2611 3 chr5D.!!$R1 1786
4 TraesCS5B01G549300 chr4A 621187744 621191505 3761 False 1633.000000 2710 87.525000 735 3600 2 chr4A.!!$F2 2865
5 TraesCS5B01G549300 chr4A 621240468 621242978 2510 True 561.700000 1273 82.915667 98 2616 3 chr4A.!!$R1 2518

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
884 1065 0.032416 TTTAGTCCCTCCCTCCCTCG 60.032 60.0 0.00 0.0 0.00 4.63 F
989 1195 0.924090 GATCGACCAGTTTGCTAGCG 59.076 55.0 10.77 0.0 0.00 4.26 F
1433 1724 0.961753 CAGGGAGCTTTGGTTCAACC 59.038 55.0 0.00 0.0 39.22 3.77 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1956 2303 0.391263 GGTGTAGTGGTAGCAGTGCC 60.391 60.0 12.58 8.03 0.00 5.01 R
2083 2430 0.902984 TGAAGAGGAAGCCGTAGCCA 60.903 55.0 0.00 0.00 41.25 4.75 R
3370 4730 0.461961 CCAGCTATATCCTAGCGGCC 59.538 60.0 0.00 0.00 44.73 6.13 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 3.354089 GGATTAATGCACGGTGGAATG 57.646 47.619 6.39 0.00 0.00 2.67
21 22 2.543653 GGATTAATGCACGGTGGAATGC 60.544 50.000 6.39 0.00 42.40 3.56
25 26 2.476772 TGCACGGTGGAATGCATAC 58.523 52.632 10.60 0.00 46.63 2.39
26 27 0.322008 TGCACGGTGGAATGCATACA 60.322 50.000 10.60 0.00 46.63 2.29
27 28 1.024271 GCACGGTGGAATGCATACAT 58.976 50.000 10.60 0.00 41.65 2.29
28 29 2.217750 GCACGGTGGAATGCATACATA 58.782 47.619 10.60 0.00 41.65 2.29
29 30 2.032030 GCACGGTGGAATGCATACATAC 60.032 50.000 10.60 0.00 41.65 2.39
30 31 3.202097 CACGGTGGAATGCATACATACA 58.798 45.455 0.00 0.00 34.62 2.29
31 32 3.814842 CACGGTGGAATGCATACATACAT 59.185 43.478 0.00 0.00 34.62 2.29
32 33 3.814842 ACGGTGGAATGCATACATACATG 59.185 43.478 0.00 0.00 34.62 3.21
33 34 4.064388 CGGTGGAATGCATACATACATGA 58.936 43.478 0.00 0.00 34.62 3.07
34 35 4.696877 CGGTGGAATGCATACATACATGAT 59.303 41.667 0.00 0.00 34.62 2.45
35 36 5.874261 CGGTGGAATGCATACATACATGATA 59.126 40.000 0.00 0.00 34.62 2.15
36 37 6.183360 CGGTGGAATGCATACATACATGATAC 60.183 42.308 0.00 0.00 34.62 2.24
37 38 6.881065 GGTGGAATGCATACATACATGATACT 59.119 38.462 0.00 0.00 34.62 2.12
38 39 8.040727 GGTGGAATGCATACATACATGATACTA 58.959 37.037 0.00 0.00 34.62 1.82
39 40 8.873830 GTGGAATGCATACATACATGATACTAC 58.126 37.037 0.00 0.00 34.62 2.73
40 41 8.592809 TGGAATGCATACATACATGATACTACA 58.407 33.333 0.00 0.00 34.62 2.74
41 42 9.605275 GGAATGCATACATACATGATACTACAT 57.395 33.333 0.00 0.00 34.62 2.29
69 70 8.079203 TGTATGTACAATGTGTGGAAATGTTTC 58.921 33.333 0.00 0.00 33.24 2.78
76 77 5.247507 TGTGTGGAAATGTTTCTGTCAAG 57.752 39.130 5.56 0.00 37.35 3.02
116 117 3.268330 GGGTTAATCACGGAGAAGGAAC 58.732 50.000 0.00 0.00 0.00 3.62
172 189 4.344968 TGTATTAATGGAGCAGCTAGAGCA 59.655 41.667 4.01 0.00 45.16 4.26
175 192 1.493861 ATGGAGCAGCTAGAGCAGAA 58.506 50.000 4.01 0.00 45.16 3.02
335 373 1.003769 GCACGCTAGCAACCAAAAGC 61.004 55.000 16.45 2.47 0.00 3.51
350 388 4.692228 CCAAAAGCTGGCTCAAAAAGTTA 58.308 39.130 0.00 0.00 38.76 2.24
367 405 5.369409 AAGTTAGCCTCCCTAATTACACC 57.631 43.478 0.00 0.00 38.25 4.16
379 429 0.821517 ATTACACCGCACTCCATCGA 59.178 50.000 0.00 0.00 0.00 3.59
381 431 0.604073 TACACCGCACTCCATCGAAA 59.396 50.000 0.00 0.00 0.00 3.46
514 610 6.238648 GGCACAAACTCTAGTACACACAAAAT 60.239 38.462 0.00 0.00 0.00 1.82
525 621 2.699846 ACACACAAAATGCCAACCTGAT 59.300 40.909 0.00 0.00 0.00 2.90
541 637 4.892433 ACCTGATGAACTCTGCTATATGC 58.108 43.478 0.00 0.00 43.25 3.14
542 638 4.252073 CCTGATGAACTCTGCTATATGCC 58.748 47.826 0.00 0.00 42.00 4.40
543 639 4.262765 CCTGATGAACTCTGCTATATGCCA 60.263 45.833 0.00 0.00 42.00 4.92
544 640 4.891260 TGATGAACTCTGCTATATGCCAG 58.109 43.478 0.00 0.00 42.00 4.85
545 641 3.758755 TGAACTCTGCTATATGCCAGG 57.241 47.619 5.07 0.00 42.00 4.45
546 642 2.224378 TGAACTCTGCTATATGCCAGGC 60.224 50.000 3.66 3.66 42.00 4.85
576 672 8.786898 GGCACACTACATTACATTATGATGATT 58.213 33.333 4.20 0.00 36.73 2.57
680 830 4.433615 GTGTCCGATATATATGGTGCCAG 58.566 47.826 0.00 0.00 0.00 4.85
683 833 5.425217 TGTCCGATATATATGGTGCCAGATT 59.575 40.000 3.53 0.00 0.00 2.40
822 988 2.375146 GGTTTCGCAATACCAAGGGAT 58.625 47.619 0.00 0.00 34.48 3.85
828 994 1.227853 AATACCAAGGGATCGCCGC 60.228 57.895 6.09 0.00 33.83 6.53
829 995 2.676163 AATACCAAGGGATCGCCGCC 62.676 60.000 6.09 0.00 33.83 6.13
831 997 2.932569 TACCAAGGGATCGCCGCCTA 62.933 60.000 6.09 0.00 33.83 3.93
835 1014 0.824759 AAGGGATCGCCGCCTATATC 59.175 55.000 6.09 0.00 33.83 1.63
860 1041 1.305219 GCCCGCAGCAACTCATACAA 61.305 55.000 0.00 0.00 42.97 2.41
884 1065 0.032416 TTTAGTCCCTCCCTCCCTCG 60.032 60.000 0.00 0.00 0.00 4.63
959 1161 2.544694 GGGCTGAGTACATGATCAGTCG 60.545 54.545 20.47 0.00 46.74 4.18
966 1168 8.095928 CTGAGTACATGATCAGTCGACTTCGA 62.096 46.154 17.26 11.93 39.06 3.71
989 1195 0.924090 GATCGACCAGTTTGCTAGCG 59.076 55.000 10.77 0.00 0.00 4.26
992 1198 1.003718 GACCAGTTTGCTAGCGGGT 60.004 57.895 10.77 11.91 35.95 5.28
1157 1363 1.302511 GCCACTTCTCCGGCTTGAA 60.303 57.895 0.00 0.00 45.29 2.69
1173 1385 3.863424 GCTTGAAGTTATCATCCGACGAA 59.137 43.478 0.00 0.00 38.03 3.85
1226 1438 2.021793 CGCCGTTGTGCATCATCG 59.978 61.111 0.00 1.22 38.50 3.84
1433 1724 0.961753 CAGGGAGCTTTGGTTCAACC 59.038 55.000 0.00 0.00 39.22 3.77
1532 1857 7.535258 CACTGAATTAAACAACCAAGATTCTCG 59.465 37.037 0.00 0.00 0.00 4.04
1557 1891 6.461092 GGTTGATATATCTTGTCACGAGTCCA 60.461 42.308 13.79 0.00 0.00 4.02
1567 1913 3.509967 TGTCACGAGTCCATCAGTTACAT 59.490 43.478 0.00 0.00 0.00 2.29
1620 1966 2.031769 GCAAATTTGACCAAAAGCAGGC 60.032 45.455 22.31 0.00 33.56 4.85
1906 2253 2.262915 CTCCTCCCACACGTGCTC 59.737 66.667 17.22 0.00 0.00 4.26
1924 2271 3.717294 GTCGTGGCCATGGACCCT 61.717 66.667 24.78 0.00 0.00 4.34
2083 2430 4.845580 CGCCGCATCCTGGAGCTT 62.846 66.667 1.52 0.00 0.00 3.74
2533 2880 1.296715 CTATACCAGGATGCCGCCC 59.703 63.158 0.00 0.00 31.97 6.13
2629 2976 6.205076 TCAATTTTGGTTGATGGATTTTGCAG 59.795 34.615 0.00 0.00 33.41 4.41
2639 2986 2.290367 TGGATTTTGCAGTCGTCTGTTG 59.710 45.455 11.28 0.00 43.05 3.33
2855 4170 9.368674 CACCAAATTTCTAATTGAATGTATGCA 57.631 29.630 0.00 0.00 34.24 3.96
2890 4205 8.149973 TGTAAACACAAAACATCCTTCTAGAC 57.850 34.615 0.00 0.00 0.00 2.59
2999 4316 9.340695 TGAATAGTTTTTAAATTGACATGAGCG 57.659 29.630 0.00 0.00 0.00 5.03
3111 4440 9.407514 CAAATTTTCAAAATACGTGAACACTTG 57.592 29.630 0.00 1.43 34.78 3.16
3112 4441 8.696410 AATTTTCAAAATACGTGAACACTTGT 57.304 26.923 0.00 0.00 34.78 3.16
3113 4442 8.696410 ATTTTCAAAATACGTGAACACTTGTT 57.304 26.923 0.00 0.00 41.64 2.83
3270 4601 9.139174 GGTTAGACATTTTTCACCACATAAATG 57.861 33.333 0.00 0.00 41.44 2.32
3370 4730 5.547716 GAGAATCTTGCGAATGTACTACG 57.452 43.478 0.00 0.00 0.00 3.51
3411 4771 4.421948 GTCCTAGAATCAAGTACCACACG 58.578 47.826 0.00 0.00 0.00 4.49
3417 4777 2.582728 TCAAGTACCACACGTCGTTT 57.417 45.000 0.00 0.00 0.00 3.60
3434 4794 6.521821 ACGTCGTTTGTTCATAATAATTGCAC 59.478 34.615 0.00 0.00 0.00 4.57
3455 4815 5.805994 GCACTCATGTACTTACTAACTGTCC 59.194 44.000 0.00 0.00 0.00 4.02
3472 4832 2.438249 CCTGCCTAGCTAGCTGCCA 61.438 63.158 27.68 18.27 44.23 4.92
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.543653 GCATTCCACCGTGCATTAATCC 60.544 50.000 0.00 0.00 40.94 3.01
1 2 2.098934 TGCATTCCACCGTGCATTAATC 59.901 45.455 0.00 0.00 45.60 1.75
2 3 2.098614 TGCATTCCACCGTGCATTAAT 58.901 42.857 0.00 0.00 45.60 1.40
3 4 1.539157 TGCATTCCACCGTGCATTAA 58.461 45.000 0.00 0.00 45.60 1.40
4 5 3.256281 TGCATTCCACCGTGCATTA 57.744 47.368 0.00 0.00 45.60 1.90
5 6 4.093966 TGCATTCCACCGTGCATT 57.906 50.000 0.00 0.00 45.60 3.56
8 9 1.024271 ATGTATGCATTCCACCGTGC 58.976 50.000 3.54 0.00 41.61 5.34
9 10 3.202097 TGTATGTATGCATTCCACCGTG 58.798 45.455 3.54 0.00 36.58 4.94
10 11 3.552132 TGTATGTATGCATTCCACCGT 57.448 42.857 3.54 0.00 36.58 4.83
11 12 4.064388 TCATGTATGTATGCATTCCACCG 58.936 43.478 3.54 0.00 36.58 4.94
12 13 6.881065 AGTATCATGTATGTATGCATTCCACC 59.119 38.462 3.54 0.00 36.58 4.61
13 14 7.912056 AGTATCATGTATGTATGCATTCCAC 57.088 36.000 3.54 0.00 36.58 4.02
14 15 8.592809 TGTAGTATCATGTATGTATGCATTCCA 58.407 33.333 3.54 2.42 36.58 3.53
15 16 9.605275 ATGTAGTATCATGTATGTATGCATTCC 57.395 33.333 3.54 0.00 36.58 3.01
34 35 9.974980 CCACACATTGTACATACATATGTAGTA 57.025 33.333 19.80 17.22 46.44 1.82
35 36 8.700973 TCCACACATTGTACATACATATGTAGT 58.299 33.333 19.80 18.04 46.44 2.73
36 37 9.541143 TTCCACACATTGTACATACATATGTAG 57.459 33.333 19.80 13.99 46.44 2.74
37 38 9.892130 TTTCCACACATTGTACATACATATGTA 57.108 29.630 17.65 17.65 44.54 2.29
39 40 9.667989 CATTTCCACACATTGTACATACATATG 57.332 33.333 0.00 0.00 39.55 1.78
40 41 9.407380 ACATTTCCACACATTGTACATACATAT 57.593 29.630 0.00 0.00 35.89 1.78
41 42 8.800370 ACATTTCCACACATTGTACATACATA 57.200 30.769 0.00 0.00 35.89 2.29
42 43 7.701539 ACATTTCCACACATTGTACATACAT 57.298 32.000 0.00 0.00 35.89 2.29
43 44 7.517614 AACATTTCCACACATTGTACATACA 57.482 32.000 0.00 0.00 0.00 2.29
44 45 8.296713 AGAAACATTTCCACACATTGTACATAC 58.703 33.333 0.00 0.00 37.92 2.39
45 46 8.296000 CAGAAACATTTCCACACATTGTACATA 58.704 33.333 0.00 0.00 37.92 2.29
46 47 7.147312 CAGAAACATTTCCACACATTGTACAT 58.853 34.615 0.00 0.00 37.92 2.29
47 48 6.096141 ACAGAAACATTTCCACACATTGTACA 59.904 34.615 0.00 0.00 37.92 2.90
48 49 6.503524 ACAGAAACATTTCCACACATTGTAC 58.496 36.000 0.68 0.00 37.92 2.90
49 50 6.319911 TGACAGAAACATTTCCACACATTGTA 59.680 34.615 0.68 0.00 37.92 2.41
50 51 5.126869 TGACAGAAACATTTCCACACATTGT 59.873 36.000 0.68 0.00 37.92 2.71
51 52 5.590145 TGACAGAAACATTTCCACACATTG 58.410 37.500 0.68 0.00 37.92 2.82
52 53 5.850557 TGACAGAAACATTTCCACACATT 57.149 34.783 0.68 0.00 37.92 2.71
53 54 5.221303 CCTTGACAGAAACATTTCCACACAT 60.221 40.000 0.68 0.00 37.92 3.21
54 55 4.097741 CCTTGACAGAAACATTTCCACACA 59.902 41.667 0.68 0.00 37.92 3.72
55 56 4.338118 TCCTTGACAGAAACATTTCCACAC 59.662 41.667 0.68 0.00 37.92 3.82
69 70 2.159517 GGCACGCTAATTTCCTTGACAG 60.160 50.000 0.00 0.00 0.00 3.51
76 77 1.433471 GGCTGGCACGCTAATTTCC 59.567 57.895 8.45 0.00 0.00 3.13
148 155 4.928615 GCTCTAGCTGCTCCATTAATACAG 59.071 45.833 4.91 0.00 38.21 2.74
185 202 4.873129 CCCATCCGTCGTCTGCCG 62.873 72.222 0.00 0.00 38.13 5.69
194 211 0.861155 ATCCTCTACCTCCCATCCGT 59.139 55.000 0.00 0.00 0.00 4.69
195 212 2.309162 TCTATCCTCTACCTCCCATCCG 59.691 54.545 0.00 0.00 0.00 4.18
196 213 4.090819 GTTCTATCCTCTACCTCCCATCC 58.909 52.174 0.00 0.00 0.00 3.51
198 215 4.171044 ACTGTTCTATCCTCTACCTCCCAT 59.829 45.833 0.00 0.00 0.00 4.00
199 216 3.532232 ACTGTTCTATCCTCTACCTCCCA 59.468 47.826 0.00 0.00 0.00 4.37
350 388 0.468648 GCGGTGTAATTAGGGAGGCT 59.531 55.000 0.00 0.00 0.00 4.58
367 405 3.046390 GAGACTATTTCGATGGAGTGCG 58.954 50.000 0.00 0.00 0.00 5.34
379 429 0.029567 CGAGGCGAGCGAGACTATTT 59.970 55.000 0.00 0.00 0.00 1.40
381 431 2.255172 CCGAGGCGAGCGAGACTAT 61.255 63.158 0.00 0.00 0.00 2.12
495 555 5.373222 TGGCATTTTGTGTGTACTAGAGTT 58.627 37.500 0.00 0.00 0.00 3.01
514 610 1.883638 GCAGAGTTCATCAGGTTGGCA 60.884 52.381 0.00 0.00 0.00 4.92
541 637 1.078848 GTAGTGTGCCTGAGCCTGG 60.079 63.158 0.00 0.00 38.69 4.45
542 638 0.251354 ATGTAGTGTGCCTGAGCCTG 59.749 55.000 0.00 0.00 38.69 4.85
543 639 0.987294 AATGTAGTGTGCCTGAGCCT 59.013 50.000 0.00 0.00 38.69 4.58
544 640 2.280628 GTAATGTAGTGTGCCTGAGCC 58.719 52.381 0.00 0.00 38.69 4.70
545 641 2.972625 TGTAATGTAGTGTGCCTGAGC 58.027 47.619 0.00 0.00 40.48 4.26
546 642 6.986231 TCATAATGTAATGTAGTGTGCCTGAG 59.014 38.462 0.00 0.00 0.00 3.35
576 672 7.953005 TGAGGAAAAATACAATAGCAATGGA 57.047 32.000 0.00 0.00 0.00 3.41
657 807 3.119280 TGGCACCATATATATCGGACACG 60.119 47.826 14.48 0.00 42.74 4.49
658 808 4.159693 TCTGGCACCATATATATCGGACAC 59.840 45.833 14.48 7.16 0.00 3.67
659 809 4.349365 TCTGGCACCATATATATCGGACA 58.651 43.478 14.48 5.94 0.00 4.02
673 823 1.406539 CATGCACCTTAATCTGGCACC 59.593 52.381 0.00 0.00 37.30 5.01
680 830 9.326413 ACTACTAACATAACATGCACCTTAATC 57.674 33.333 0.00 0.00 0.00 1.75
683 833 8.974238 ACTACTACTAACATAACATGCACCTTA 58.026 33.333 0.00 0.00 0.00 2.69
717 870 4.157289 TGCTCAGCAAGATTTCTTCCATTC 59.843 41.667 0.00 0.00 34.76 2.67
721 874 3.761311 CTGCTCAGCAAGATTTCTTCC 57.239 47.619 0.00 0.00 38.41 3.46
745 903 0.179124 CTAGAGTCGTTGCCTCTGCC 60.179 60.000 0.00 0.00 39.57 4.85
822 988 1.471119 CCCTTAGATATAGGCGGCGA 58.529 55.000 12.98 0.00 0.00 5.54
828 994 1.482593 CTGCGGGCCCTTAGATATAGG 59.517 57.143 22.43 0.04 0.00 2.57
829 995 1.134670 GCTGCGGGCCCTTAGATATAG 60.135 57.143 22.43 0.92 34.27 1.31
830 996 0.902531 GCTGCGGGCCCTTAGATATA 59.097 55.000 22.43 0.00 34.27 0.86
831 997 1.127567 TGCTGCGGGCCCTTAGATAT 61.128 55.000 22.43 0.00 40.92 1.63
835 1014 3.134127 GTTGCTGCGGGCCCTTAG 61.134 66.667 22.43 18.54 40.92 2.18
860 1041 2.700540 GGGAGGGAGGGACTAAATGGAT 60.701 54.545 0.00 0.00 41.55 3.41
884 1065 2.551071 GGTGATGGGATTAGCTACCAGC 60.551 54.545 9.56 9.56 42.84 4.85
966 1168 0.603569 AGCAAACTGGTCGATCGAGT 59.396 50.000 20.09 10.54 36.70 4.18
967 1169 2.455032 CTAGCAAACTGGTCGATCGAG 58.545 52.381 20.09 9.81 0.00 4.04
968 1170 1.469251 GCTAGCAAACTGGTCGATCGA 60.469 52.381 15.15 15.15 0.00 3.59
969 1171 0.924090 GCTAGCAAACTGGTCGATCG 59.076 55.000 10.63 9.36 0.00 3.69
970 1172 0.924090 CGCTAGCAAACTGGTCGATC 59.076 55.000 16.45 0.00 0.00 3.69
971 1173 0.460284 CCGCTAGCAAACTGGTCGAT 60.460 55.000 16.45 0.00 0.00 3.59
976 1182 0.392998 ATCACCCGCTAGCAAACTGG 60.393 55.000 16.45 7.09 0.00 4.00
982 1188 1.202348 CATATCGATCACCCGCTAGCA 59.798 52.381 16.45 0.00 0.00 3.49
989 1195 1.279271 CCTTCCCCATATCGATCACCC 59.721 57.143 0.00 0.00 0.00 4.61
992 1198 1.977854 CCACCTTCCCCATATCGATCA 59.022 52.381 0.00 0.00 0.00 2.92
1068 1274 4.796231 ATGACGACGGTGAGCGCC 62.796 66.667 2.29 0.00 0.00 6.53
1157 1363 2.165641 TGCTGTTCGTCGGATGATAACT 59.834 45.455 0.00 0.00 0.00 2.24
1188 1400 4.752879 GCTGCTGCCGTCCCGTTA 62.753 66.667 3.85 0.00 0.00 3.18
1209 1421 2.021793 CGATGATGCACAACGGCG 59.978 61.111 4.80 4.80 40.26 6.46
1294 1515 3.421844 AGGTAGAATTGGGCTTTGTGAC 58.578 45.455 0.00 0.00 0.00 3.67
1532 1857 5.921408 GGACTCGTGACAAGATATATCAACC 59.079 44.000 15.08 2.23 0.00 3.77
1586 1932 5.462068 GGTCAAATTTGCCGCTATTAATTCC 59.538 40.000 13.54 0.00 0.00 3.01
1661 2007 3.462483 TTTCTTGAGTACTCCACGCAA 57.538 42.857 20.11 7.06 43.59 4.85
1956 2303 0.391263 GGTGTAGTGGTAGCAGTGCC 60.391 60.000 12.58 8.03 0.00 5.01
2083 2430 0.902984 TGAAGAGGAAGCCGTAGCCA 60.903 55.000 0.00 0.00 41.25 4.75
2380 2727 4.807039 CCGACGTAGGCCGGGTTG 62.807 72.222 2.18 0.22 42.43 3.77
2584 2931 5.611796 TGATGGATCAAACTTGTTTCTCG 57.388 39.130 0.00 0.00 33.08 4.04
2629 2976 6.121613 ACTACTCTATAAGCAACAGACGAC 57.878 41.667 0.00 0.00 0.00 4.34
2769 3116 8.487313 AATGAAAGTGGTAAAACAGGAAAAAC 57.513 30.769 0.00 0.00 0.00 2.43
2808 3306 9.693739 TTGGTGTATTGGTTCAGACATATTTAT 57.306 29.630 0.00 0.00 0.00 1.40
2816 3314 6.981722 AGAAATTTGGTGTATTGGTTCAGAC 58.018 36.000 0.00 0.00 0.00 3.51
3055 4384 9.396022 ACGTCTTTTAAGAAATATCCATCATGT 57.604 29.630 0.00 0.00 36.68 3.21
3061 4390 8.610248 TGTTCACGTCTTTTAAGAAATATCCA 57.390 30.769 0.00 0.00 36.68 3.41
3079 4408 7.822713 TCACGTATTTTGAAAATTTGTTCACG 58.177 30.769 15.60 15.60 37.24 4.35
3080 4409 9.403869 GTTCACGTATTTTGAAAATTTGTTCAC 57.596 29.630 8.60 0.00 37.24 3.18
3089 4418 8.522178 AAACAAGTGTTCACGTATTTTGAAAA 57.478 26.923 0.00 0.00 37.25 2.29
3141 4470 9.612066 AGCTTTTCCAAATTTTCTTATGTCAAA 57.388 25.926 0.00 0.00 0.00 2.69
3142 4471 9.612066 AAGCTTTTCCAAATTTTCTTATGTCAA 57.388 25.926 0.00 0.00 0.00 3.18
3143 4472 9.044150 CAAGCTTTTCCAAATTTTCTTATGTCA 57.956 29.630 0.00 0.00 0.00 3.58
3149 4478 6.037500 GCAGTCAAGCTTTTCCAAATTTTCTT 59.962 34.615 0.00 0.00 0.00 2.52
3152 4481 5.430886 AGCAGTCAAGCTTTTCCAAATTTT 58.569 33.333 0.00 0.00 43.70 1.82
3153 4482 5.027293 AGCAGTCAAGCTTTTCCAAATTT 57.973 34.783 0.00 0.00 43.70 1.82
3291 4623 6.294361 TGGCTAATAACTGAACAAGCTAGA 57.706 37.500 0.00 0.00 0.00 2.43
3370 4730 0.461961 CCAGCTATATCCTAGCGGCC 59.538 60.000 0.00 0.00 44.73 6.13
3411 4771 7.748683 TGAGTGCAATTATTATGAACAAACGAC 59.251 33.333 0.00 0.00 0.00 4.34
3417 4777 9.394767 AGTACATGAGTGCAATTATTATGAACA 57.605 29.630 0.00 0.00 32.20 3.18
3434 4794 6.037098 GCAGGACAGTTAGTAAGTACATGAG 58.963 44.000 0.00 0.00 0.00 2.90
3455 4815 1.227497 GTGGCAGCTAGCTAGGCAG 60.227 63.158 29.95 16.28 44.79 4.85
3472 4832 7.716998 GGTAGATGAACCTAACATGATTGATGT 59.283 37.037 0.00 0.00 40.65 3.06
3546 4906 1.082300 CGCTGAACTGCTTGCAGTG 60.082 57.895 26.06 15.94 35.30 3.66


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.